Main
Aurélien Ginolhac
Bioanalyst, Providing bioinformatic services to the Life Sciences Research Unit
Education
PhD. In bioinformatics. Study of bacterial polyketide synthases
University Claude Bernard
Lyon, France
2006 - 2003
- Joint supervision industry/ university (CIFRE)
Master in bioinformatics (french “DESS”)
University of Rouen
Rouen, France
2003 - 2001
- apprenticeship over one year in industry
Research Experience
Research Scientist
University of Luxembourg
Belvaux, Luxembourg
2019 - 2014
- Head of the bioinformatic core for the LSRU
Postdoctoral fellow
Centre for GeoGenetics
Copenhagen, Denmark
2014 - 2012
- Bioanalyst, equids evolution and ancient DNA
- Marie-Curie Fellowship
Postdoctoral fellow
Centre for GeoGenetics
Copenhagen, Denmark
2012 - 2010
- ancient DNA
Industry Experience
Research Scientist
LibraGen SA.
Toulouse, France
2010 - 2006
- Biocatalysis, bioinformatics
- System administration
PhD Candidate
LibraGen SA.
Lyon, France
2006 - 2003
- bioinformatics and metagenomic
- System administration
Teaching Experience
Summary
- Total number of peer-reviewed publications: 29
- 5 as leading author
- Total number of citations: 1,692
- Average citation 60.43
- ORCID ID: 0000-0001-7665-9547
H-index: 18
Biostatistics 2. Bachelor in Life Sciences
University of Luxembourg
Belvaux, Luxembourg
2019 - 2014
- 60 hours with half hands-on. 7 ECTS
- https://biostat2.uni.lu/
Workshop on data processing with R tidyverse
University of Luxembourg
Belvaux, Luxembourg
2019 - 2016
- Four days course with half hands-on. 2 ECTS
- With Dr. Roland Krause via Elixir Luxembourg
- https://rworkshop.uni.lu/
Workshop on ancient DNA analysis
Danish Technology University
Lyngby, Denmark
2014 - 2012
- Practical course in the Next Generation Sequencing Analysis
Paleogenomic workflows at the Center for GeoGenetics
CNRS Summer School
Cargese, France
2010
- Lectures and hands-on sessions
Publications
Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny
Cappellini, E. Welker, F. Pandolfi, L. Ramos-Madrigal, J. Samodova, D. Ruther, P. L. Fotakis, A. K. Lyon, D. Moreno-Mayar, J. V. Bukhsianidze, M. Rakownikow Jersie-Christensen, R. Mackie, M. Ginolhac, A. Ferring, R. Tappen, M. Palkopoulou, E. Dickinson, M. R. Stafford, T. W. Chan, Y. L. Gotherstrom, A. Nathan, S. K. S. S. Heintzman, P. D. Kapp, J. D. Kirillova, I. Moodley, Y. Agusti, J. Kahlke, R. D. Kiladze, G. Martinez-Navarro, B. Liu, S. Sandoval Velasco, M. Sinding, M. S. Kelstrup, C. D. Allentoft, M. E. Orlando, L. Penkman, K. Shapiro, B. Rook, L. Dalen, L. Gilbert, M. T. P. Olsen, J. V. Lordkipanidze, D. and Willerslev, E. Nature 574, 103–107
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2019
Identification of genes under dynamic post-transcriptional regulation from time-series epigenomic data
Becker, J. C. Gerard, D. Ginolhac, A. Sauter, T. Sinkkonen, L. et al. Epigenomics 11, 619–638
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Temporal enhancer profiling of parallel lineages identifies AHR and GLIS1 as regulators of mesenchymal multipotency
Gerard, D. Schmidt, F. Ginolhac, A. Schmitz, M. Halder, R. et al. Nucleic Acids Res. 47, 1141–1163
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Cytokine-mediated modulation of the hepatic miRNome: miR-146b-5p is an IL-6-inducible miRNA with multiple targets
Kirchmeyer, M. Servais, F. A. Hamdorf, M. Nazarov, P. V. Ginolhac, A. Halder, R. Vallar, L. Glanemann, M. Rubie, C. Lammert, F. et al. J. Leukoc. Biol. 104, 987–1002
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2018
The PD-L1- and IL6-mediated dampening of the IL27/STAT1 anticancer responses are prevented by \(\alpha\)-PD-L1 or \(\alpha\)-IL6 antibodies
Rolvering, C. Zimmer, A. D. Ginolhac, A. Margue, C. Kirchmeyer, M. Servais, F. Hermanns, H. M. Hergovits, S. Nazarov, P. V. Nicot, N. et al. J. Leukoc. Biol. 104, 969–985
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The miR-371 similar to 373 Cluster Represses Colon Cancer Initiation and Metastatic Colonization by Inhibiting the TGFBR2/ID1 Signaling Axis
Ullmann, P. Rodriguez, F. Schmitz, M. Meurer, S. K. Qureshi-Baig, K. Felten, P. Ginolhac, A. Antunes, L. Frasquilho, S. Zugel, N. et al. Cancer Res. 78, 3793–3808
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Loss of Myosin Vb in colorectal cancer is a strong prognostic factor for disease recurrence
Letellier, E. Schmitz, M. Ginolhac, A. Rodriguez, F. Ullmann, P. et al. Br. J. Cancer 117, 1689–1701
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2017
Crosstalk between different family members: IL27 recapitulates IFN \(\gamma\) responses in HCC cells, but is inhibited by IL6-type cytokines
Rolvering, C. Zimmer, A. D. Kozar, I. Hermanns, H. M. Letellier, E. Vallar, L. Nazarov, P. V. Nicot, N. Ginolhac, A. Haan, S. et al. Biochim Biophys Acta Mol Cell Res 1864, 516–526
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Hypoxia-responsive miR-210 promotes self-renewal capacity of colon tumor-initiating cells by repressing ISCU and by inducing lactate production
Ullmann, P. Qureshi-Baig, K. Rodriguez, F. Ginolhac, A. Nonnenmacher, Y. Ternes, D. Weiler, J. Gabler, K. Bahlawane, C. Hiller, K. et al. Oncotarget 7, 65454–65470
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2016
Role of Calprotectin as a Modulator of the IL27-Mediated Proinflammatory Effect on Endothelial Cells
Dorosz, S. A. Ginolhac, A. Kahne, T. Naumann, M. Sauter, T. et al. Mediators Inflamm. 2015, 737310
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2015
Evolutionary Genomics and Conservation of the Endangered Przewalski’s Horse
Der Sarkissian, C. Ermini, L. Schubert, M. Yang, M. A. Librado, P. Fumagalli, M. Jonsson, H. Bar-Gal, G. K. Albrechtsen, A. Vieira, F. G. Petersen, B. Ginolhac, A. Seguin-Orlando, A. Magnussen, K. Fages, A. Gamba, C. Lorente-Galdos, B. Polani, S. Steiner, C. Neuditschko, M. Jagannathan, V. Feh, C. Greenblatt, C. L. Ludwig, A. Abramson, N. I. Zimmermann, W. Schafberg, R. Tikhonov, A. Sicheritz-Ponten, T. Willerslev, E. Marques-Bonet, T. Ryder, O. A. McCue, M. Rieder, S. Leeb, T. Slatkin, M. and Orlando, L. Curr. Biol. 25, 2577–2583
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Prehistoric genomes reveal the genetic foundation and cost of horse domestication
Schubert, M. Jonsson, H. Chang, D. Der Sarkissian, C. Ermini, L. Ginolhac, A. Albrechtsen, A. Dupanloup, I. Foucal, A. Petersen, B. et al. Proc. Natl. Acad. Sci. U.S.A. 111, E5661–5669
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2014
Speciation with gene flow in equids despite extensive chromosomal plasticity
Jonsson, H. Schubert, M. Seguin-Orlando, A. Ginolhac, A. Petersen, L. Fumagalli, M. Albrechtsen, A. Petersen, B. Korneliussen, T. S. Vilstrup, J. T. et al. Proc. Natl. Acad. Sci. U.S.A. 111, 18655–18660
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Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX
Schubert, M. Ermini, L. Der Sarkissian, C. Jonsson, H. Ginolhac, A. Schaefer, R. Martin, M. D. Fernandez, R. Kircher, M. McCue, M. et al. Nat Protoc 9, 1056–1082
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A comparative study of ancient environmental DNA to pollen and macrofossils from lake sediments reveals taxonomic overlap and additional plant taxa
Pedersen, Mikkel Winther Ginolhac, Aurelien Orlando, Ludovic Olsen, Jesper Andersen, Kenneth et al. Quaternary Science Reviews 75, 161–168
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2013
Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse
Orlando, L. Ginolhac, A. Zhang, G. Froese, D. Albrechtsen, A. Stiller, M. Schubert, M. Cappellini, E. Petersen, B. Moltke, I. et al. Nature 499, 74–78
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mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters
Jonsson, H. Ginolhac, A. Schubert, M. Johnson, P. L. Orlando, L. et al. Bioinformatics 29, 1682–1684
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Mitochondrial phylogenomics of modern and ancient equids
Vilstrup, J. T. Seguin-Orlando, A. Stiller, M. Ginolhac, A. Raghavan, M. Nielsen, S. C. Weinstock, J. Froese, D. Vasiliev, S. K. Ovodov, N. D. et al. PLoS ONE 8, e55950
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Improving ancient DNA read mapping against modern reference genomes
Schubert, M. Ginolhac, A. Lindgreen, S. Thompson, J. F. Al-Rasheid, K. A. et al. BMC Genomics 13, 178
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2012
Improving the performance of true single molecule sequencing for ancient DNA
Ginolhac, A. Vilstrup, J. Stenderup, J. Rasmussen, M. Stiller, M. Shapiro, B. Zazula, G. Froese, D. Steinmann, K. E. Thompson, J. F. et al. BMC Genomics 13, 177
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Proteomic analysis of a pleistocene mammoth femur reveals more than one hundred ancient bone proteins
Cappellini, E. Jensen, L. J. Szklarczyk, D. Ginolhac, A. da Fonseca, R. A. Stafford, T. W. Holen, S. R. Collins, M. J. Orlando, L. Willerslev, E. et al. J. Proteome Res. 11, 917–926
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True single-molecule DNA sequencing of a pleistocene horse bone
Orlando, L. Ginolhac, A. Raghavan, M. Vilstrup, J. Rasmussen, M. Magnussen, K. Steinmann, K. E. Kapranov, P. Thompson, J. F. Zazula, G. et al. Genome Res. 21, 1705–1719
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2011
mapDamage: testing for damage patterns in ancient DNA sequences
Ginolhac, A. Rasmussen, M. Gilbert, M. T. Willerslev, E. Orlando, L. et al. Bioinformatics 27, 2153–2155
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Environmental metagenomics: An innovative resource for industrial biocatalysis
Lefevre, Fabrice Jarrin, Cyrille Ginolhac, Aurelien Auriol, Daniel Nalin, Renaud et al. Biocatalysis & Biotransformation 25, 242-250
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2007
Type I polyketide synthases may have evolved through horizontal gene transfer
Ginolhac, A. Jarrin, C. Robe, P. Perriere, G. Vogel, T. M. et al. J. Mol. Evol. 60, 716–725
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2005
Phylogenetic analysis of polyketide synthase I domains from soil metagenomic libraries allows selection of promising clones
Ginolhac, A. Jarrin, C. Gillet, B. Robe, P. Pujic, P. Tuphile, K. Bertrand, H. Vogel, T. M. Perriere, G. Simonet, P. et al. Appl. Environ. Microbiol. 70, 5522–5527
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2004
Functional cytochrome oxidase histochemistry in the honeybee brain
Armengaud, C. Causse, N. Ait-Oubah, J. Ginolhac, A. Gauthier, M. et al. Brain Res. 859, 390–393
N/A
2000
Patents
Hydrosoluble [6)-O- \(\alpha\) -D-Glcp-(1 \(\rightarrow\) ]\(_n\)-6-O-\(\beta\)-D-Glcp-(1\(\rightarrow\)-phenolic Derivatives With Dermocosmetic, Nutritional And Therapeutic Applications, And Compositions Containing Said Water Soluble Compounds
Auriol, D. Ginolhac, A. Lefevre, F. et al. Patent WO 2010/072754 A1,
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2010
Method For Preparing C-6 Phosphorylated D-aldohexoses And C-6 Phosphorylated D-aldohexoses Derivatives And New C-6 Phosphorylated D-aldohexoses Derivatives
Auriol, D. Nalin, R. Lefevre, F. Ginolhac, A. De Guembecker, D. et al. Patent WO 2008/142155 A3,
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2009